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A comprehensive database for integrated analysis of omics data in autoimmune diseases

BACKGROUND: Autoimmune diseases are heterogeneous pathologies with difficult diagnosis and few therapeutic options. In the last decade, several omics studies have provided significant insights into the molecular mechanisms of these diseases. Nevertheless, data from different cohorts and pathologies...

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Autores principales: Martorell-Marugán, Jordi, López-Domínguez, Raúl, García-Moreno, Adrián, Toro-Domínguez, Daniel, Villatoro-García, Juan Antonio, Barturen, Guillermo, Martín-Gómez, Adoración, Troule, Kevin, Gómez-López, Gonzalo, Al-Shahrour, Fátima, González-Rumayor, Víctor, Peña-Chilet, María, Dopazo, Joaquín, Sáez-Rodríguez, Julio, Alarcón-Riquelme, Marta E., Carmona-Sáez, Pedro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223391/
https://www.ncbi.nlm.nih.gov/pubmed/34167460
http://dx.doi.org/10.1186/s12859-021-04268-4
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author Martorell-Marugán, Jordi
López-Domínguez, Raúl
García-Moreno, Adrián
Toro-Domínguez, Daniel
Villatoro-García, Juan Antonio
Barturen, Guillermo
Martín-Gómez, Adoración
Troule, Kevin
Gómez-López, Gonzalo
Al-Shahrour, Fátima
González-Rumayor, Víctor
Peña-Chilet, María
Dopazo, Joaquín
Sáez-Rodríguez, Julio
Alarcón-Riquelme, Marta E.
Carmona-Sáez, Pedro
author_facet Martorell-Marugán, Jordi
López-Domínguez, Raúl
García-Moreno, Adrián
Toro-Domínguez, Daniel
Villatoro-García, Juan Antonio
Barturen, Guillermo
Martín-Gómez, Adoración
Troule, Kevin
Gómez-López, Gonzalo
Al-Shahrour, Fátima
González-Rumayor, Víctor
Peña-Chilet, María
Dopazo, Joaquín
Sáez-Rodríguez, Julio
Alarcón-Riquelme, Marta E.
Carmona-Sáez, Pedro
author_sort Martorell-Marugán, Jordi
collection PubMed
description BACKGROUND: Autoimmune diseases are heterogeneous pathologies with difficult diagnosis and few therapeutic options. In the last decade, several omics studies have provided significant insights into the molecular mechanisms of these diseases. Nevertheless, data from different cohorts and pathologies are stored independently in public repositories and a unified resource is imperative to assist researchers in this field. RESULTS: Here, we present Autoimmune Diseases Explorer (https://adex.genyo.es), a database that integrates 82 curated transcriptomics and methylation studies covering 5609 samples for some of the most common autoimmune diseases. The database provides, in an easy-to-use environment, advanced data analysis and statistical methods for exploring omics datasets, including meta-analysis, differential expression or pathway analysis. CONCLUSIONS: This is the first omics database focused on autoimmune diseases. This resource incorporates homogeneously processed data to facilitate integrative analyses among studies. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12859-021-04268-4.
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spelling pubmed-82233912021-06-25 A comprehensive database for integrated analysis of omics data in autoimmune diseases Martorell-Marugán, Jordi López-Domínguez, Raúl García-Moreno, Adrián Toro-Domínguez, Daniel Villatoro-García, Juan Antonio Barturen, Guillermo Martín-Gómez, Adoración Troule, Kevin Gómez-López, Gonzalo Al-Shahrour, Fátima González-Rumayor, Víctor Peña-Chilet, María Dopazo, Joaquín Sáez-Rodríguez, Julio Alarcón-Riquelme, Marta E. Carmona-Sáez, Pedro BMC Bioinformatics Database BACKGROUND: Autoimmune diseases are heterogeneous pathologies with difficult diagnosis and few therapeutic options. In the last decade, several omics studies have provided significant insights into the molecular mechanisms of these diseases. Nevertheless, data from different cohorts and pathologies are stored independently in public repositories and a unified resource is imperative to assist researchers in this field. RESULTS: Here, we present Autoimmune Diseases Explorer (https://adex.genyo.es), a database that integrates 82 curated transcriptomics and methylation studies covering 5609 samples for some of the most common autoimmune diseases. The database provides, in an easy-to-use environment, advanced data analysis and statistical methods for exploring omics datasets, including meta-analysis, differential expression or pathway analysis. CONCLUSIONS: This is the first omics database focused on autoimmune diseases. This resource incorporates homogeneously processed data to facilitate integrative analyses among studies. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12859-021-04268-4. BioMed Central 2021-06-24 /pmc/articles/PMC8223391/ /pubmed/34167460 http://dx.doi.org/10.1186/s12859-021-04268-4 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Database
Martorell-Marugán, Jordi
López-Domínguez, Raúl
García-Moreno, Adrián
Toro-Domínguez, Daniel
Villatoro-García, Juan Antonio
Barturen, Guillermo
Martín-Gómez, Adoración
Troule, Kevin
Gómez-López, Gonzalo
Al-Shahrour, Fátima
González-Rumayor, Víctor
Peña-Chilet, María
Dopazo, Joaquín
Sáez-Rodríguez, Julio
Alarcón-Riquelme, Marta E.
Carmona-Sáez, Pedro
A comprehensive database for integrated analysis of omics data in autoimmune diseases
title A comprehensive database for integrated analysis of omics data in autoimmune diseases
title_full A comprehensive database for integrated analysis of omics data in autoimmune diseases
title_fullStr A comprehensive database for integrated analysis of omics data in autoimmune diseases
title_full_unstemmed A comprehensive database for integrated analysis of omics data in autoimmune diseases
title_short A comprehensive database for integrated analysis of omics data in autoimmune diseases
title_sort comprehensive database for integrated analysis of omics data in autoimmune diseases
topic Database
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223391/
https://www.ncbi.nlm.nih.gov/pubmed/34167460
http://dx.doi.org/10.1186/s12859-021-04268-4
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